Comments (1)
clarencecastillo
commented on June 25, 2024
Created 03_no_migration_isolated_mating.py to cover this issue. (See commit: 0116fba)
- Mating scheme which is limited to its own cell produces two new organisms that is introduced as new children to the entire population. Each new organism is to inherit it's parent's location status, deme status and background mutation rate.
- Because the total population is increased, parents of the said children are then subjected to death (removed in the population) to maintain a constant population count of 50 organisms per eco_cell (1250 in the entire world).
- Reporting for every 10 generations includes the organism's genetic status (its chromosome) plus its location in the world (represented as (x,y,z)).
- Because of its large scale population count, each simulation should take about 15-20 minutes.
- Creation of this simulation lead to the discovery of a bug similar to Issue #14 which lead to updates inside genetic.py. (See commits: b5b500c abfd23a)
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Related Issues (20)
- Removed all unused modules in COPADS HOT 1
- add database logging in examples 3, 4 and 5 HOT 1
- writing function documentation for dose.simulate() function HOT 1
- Rename max_cell_population in simulation_parameters into tape_length HOT 1
- refactoring simulation_calls.deploy() function HOT 1
- add population name into Organism.status dictionary HOT 1
- extract() support methods HOT 1
- offsprings to store parents' identity in offsprings' status as list in status['parents'] HOT 1
- Refactor revive_simulation() and simulate() to call simulation_core() HOT 1
- 08_revive_simulation_03.py returns a TypeError exception when reconstructing World HOT 1
- Reconstruct write_parameters() to handle all kinds of simulation HOT 1
- write brief in-file documentation for examples HOT 1
- list the main means of how to analyze simulations #03, 04, 05
- link up database_calls.db_list_xxx functions for calls from DOSE shell HOT 1
- dose shell - convert objects (from results dictionary) to Python objects (in userdata dictionary)
- Update documentation for examples 13, 14, 15 and 16 under Examples and Case Studies
- Implement get_status_by_generation function in analytics.py HOT 1
- wiki - Clarence's short biography HOT 1
- Is our point mutation operator biologically sound?
- Problems with finding diameter of network prior to implementation of Diameter() in dossier.py
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